This document compares the results of at least 2 CASAL model configurations (base and at least one sensitivity) and up to 8 Casal2 model configurations (3 BetaDiff, 2 CppAD, and 3 ADOL-C).
The CASAL model sensitivity 1 has a smaller minimisation tolerance value than the CASAL base model (1e-7 vs. 2e-5).
The Casal2 ADOL-C and BetaDiff low tolerance models have a smaller tolerance value than the CASAL base model (1e-7 vs. 2e-5). The Casal2 CppAD models have a tolerance value of 1e-9.
The main characteristics of the Test Case BCO (ling) CASAL model are:
Observation data include:
Parameters estimated include:
## [1] "Wed Jul 29 12:59:26 2020"
## R version 3.6.3 (2020-02-29)
## Platform: x86_64-pc-linux-gnu (64-bit)
## Running under: Debian GNU/Linux bullseye/sid
##
## Matrix products: default
## BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0
## LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0
##
## locale:
## [1] LC_CTYPE=en_NZ.UTF-8 LC_NUMERIC=C
## [3] LC_TIME=en_NZ.UTF-8 LC_COLLATE=en_NZ.UTF-8
## [5] LC_MONETARY=en_NZ.UTF-8 LC_MESSAGES=en_NZ.UTF-8
## [7] LC_PAPER=en_NZ.UTF-8 LC_NAME=C
## [9] LC_ADDRESS=C LC_TELEPHONE=C
## [11] LC_MEASUREMENT=en_NZ.UTF-8 LC_IDENTIFICATION=C
##
## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] casal2_1.0 casal_2.30 devtools_2.3.1 usethis_1.6.1 rlist_0.4.6.1
## [6] ggplot2_3.3.2
##
## loaded via a namespace (and not attached):
## [1] Rcpp_1.0.5 pillar_1.4.6 compiler_3.6.3 remotes_2.2.0
## [5] prettyunits_1.1.1 tools_3.6.3 testthat_2.3.2 pkgload_1.1.0
## [9] pkgbuild_1.1.0 digest_0.6.25 memoise_1.1.0 evaluate_0.14
## [13] lifecycle_0.2.0 tibble_3.0.3 gtable_0.3.0 pkgconfig_2.0.3
## [17] rlang_0.4.7 cli_2.0.2 yaml_2.2.1 xfun_0.16
## [21] withr_2.2.0 dplyr_0.8.5 stringr_1.4.0 knitr_1.29
## [25] desc_1.2.0 vctrs_0.3.2 fs_1.4.2 rprojroot_1.3-2
## [29] grid_3.6.3 tidyselect_1.1.0 glue_1.4.1 data.table_1.13.0
## [33] R6_2.4.1 processx_3.4.3 fansi_0.4.1 rmarkdown_2.3
## [37] sessioninfo_1.1.1 callr_3.4.3 purrr_0.3.4 magrittr_1.5
## [41] backports_1.1.8 ps_1.3.3 scales_1.1.1 ellipsis_0.3.1
## [45] htmltools_0.5.0 assertthat_0.2.1 colorspace_1.4-1 stringi_1.4.6
## [49] munsell_0.5.0 crayon_1.3.4
source('../../R-functions/report_read_in_CASAL_MPD_files.R')
source('../../R-functions/report_read_in_Casal2_MPD_files.R')
Tables of parameter estimates and objective function components for the CASAL and Casal2 model MPD results
| rownames | Base_Model | Sensitivity_1 | Percent_Diff |
| initialization.B0 | 14170.00000 | 14170.00000 | 0.000 |
| recruitment.YCS1 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS2 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS3 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS4 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS5 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS6 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS7 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS8 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS9 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS10 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS11 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS12 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS13 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS14 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS15 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS16 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS17 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS18 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS19 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS20 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS21 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS22 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS23 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS24 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS25 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS26 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS27 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS28 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS29 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS30 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS31 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS32 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS33 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS34 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS35 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS36 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS37 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS38 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS39 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS40 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS41 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS42 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS43 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS44 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS45 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS46 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS47 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS48 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS49 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS50 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS51 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS52 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS53 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS54 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS55 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS56 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS57 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS58 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS59 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS60 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS61 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS62 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS63 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS64 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS65 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS66 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS67 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS68 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS69 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS70 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS71 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS72 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS73 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS74 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS75 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS76 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS77 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS78 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS79 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS80 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS81 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS82 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS83 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS84 | 0.23480 | 0.23480 | 0.000 |
| recruitment.YCS85 | 0.23160 | 0.23160 | 0.000 |
| recruitment.YCS86 | 0.23220 | 0.23220 | 0.000 |
| recruitment.YCS87 | 0.24120 | 0.24120 | 0.000 |
| recruitment.YCS88 | 0.26510 | 0.26510 | 0.000 |
| recruitment.YCS89 | 0.31720 | 0.31720 | 0.000 |
| recruitment.YCS90 | 0.42240 | 0.42240 | 0.000 |
| recruitment.YCS91 | 0.61390 | 0.61390 | 0.000 |
| recruitment.YCS92 | 0.92300 | 0.92300 | 0.000 |
| recruitment.YCS93 | 1.42900 | 1.42900 | 0.000 |
| recruitment.YCS94 | 1.48000 | 1.48000 | 0.000 |
| recruitment.YCS95 | 1.00900 | 1.00900 | 0.000 |
| recruitment.YCS96 | 0.84620 | 0.84620 | 0.000 |
| recruitment.YCS97 | 0.85550 | 0.85550 | 0.000 |
| recruitment.YCS98 | 1.08700 | 1.08700 | 0.000 |
| recruitment.YCS99 | 1.53000 | 1.53000 | 0.000 |
| recruitment.YCS100 | 1.02700 | 1.02700 | 0.000 |
| recruitment.YCS101 | 0.79990 | 0.79990 | 0.000 |
| recruitment.YCS102 | 0.82080 | 0.82080 | 0.000 |
| recruitment.YCS103 | 0.63180 | 0.63180 | 0.000 |
| recruitment.YCS104 | 0.80520 | 0.80520 | 0.000 |
| recruitment.YCS105 | 0.74530 | 0.74530 | 0.000 |
| recruitment.YCS106 | 0.46340 | 0.46340 | 0.000 |
| recruitment.YCS107 | 1.07500 | 1.07500 | 0.000 |
| recruitment.YCS108 | 0.89920 | 0.89920 | 0.000 |
| recruitment.YCS109 | 0.38510 | 0.38510 | 0.000 |
| recruitment.YCS110 | 0.91270 | 0.91270 | 0.000 |
| recruitment.YCS111 | 0.70920 | 0.70920 | 0.000 |
| recruitment.YCS112 | 0.82900 | 0.82900 | 0.000 |
| recruitment.YCS113 | 0.42330 | 0.42330 | 0.000 |
| recruitment.YCS114 | 1.27800 | 1.27800 | 0.000 |
| recruitment.YCS115 | 0.68810 | 0.68810 | 0.000 |
| recruitment.YCS116 | 0.74250 | 0.74250 | 0.000 |
| recruitment.YCS117 | 0.57050 | 0.57050 | 0.000 |
| recruitment.YCS118 | 0.45160 | 0.45160 | 0.000 |
| recruitment.YCS119 | 1.00000 | 1.00000 | 0.000 |
| recruitment.YCS120 | 1.00000 | 1.00000 | 0.000 |
| size_at_age.Linf_male | 47.12000 | 47.12000 | 0.000 |
| size_at_age.cv2_male | 0.06256 | 0.06256 | 0.000 |
| selectivity[potSsel].male1 | 3.03900 | 3.03900 | 0.000 |
| selectivity[potSsel].male2 | 0.19070 | 0.19060 | 0.052 |
| selectivity[potSsel].female1 | 3.31600 | 3.31600 | 0.000 |
| selectivity[potSsel].female2 | 1.04500 | 1.04500 | 0.000 |
| rownames | betadiff_casal_flags_on | betadiff_casal_flags_off | betadiff_casal_flags_on_low_tol | cppad_casal_flags_on | cppad_casal_flags_off | adolc_casal_flags_on | adolc_casal_flags_off | adolc_casal_flags_on_low_tol |
| process[Recruitment].b0 | 14199.60000 | 14210.70000 | 14199.60000 | 14199.60000 | 14210.70000 | 14199.60000 | 14210.70000 | 14199.60000 |
| age_length[asMm0].linf | 47.33060 | 47.31350 | 47.33060 | 47.33060 | 47.31350 | 47.33060 | 47.31350 | 47.33060 |
| age_length[asMm0].cv_last | 0.05978 | 0.06142 | 0.05978 | 0.05978 | 0.06142 | 0.05978 | 0.06142 | 0.05978 |
| selectivity[potSurveySel_male].a50 | 3.03935 | 3.04011 | 3.03932 | 3.03962 | 3.04015 | 3.03935 | 3.04011 | 3.03932 |
| selectivity[potSurveySel_male].ato95 | 0.19078 | 0.19176 | 0.19062 | 0.19208 | 0.19197 | 0.19078 | 0.19176 | 0.19062 |
| selectivity[potSurveySel_female].a50 | 3.31449 | 3.31509 | 3.31450 | 3.31450 | 3.31510 | 3.31449 | 3.31509 | 3.31450 |
| selectivity[potSurveySel_female].ato95 | 1.03324 | 1.02647 | 1.03325 | 1.03325 | 1.02651 | 1.03324 | 1.02647 | 1.03325 |
| process[Recruitment].ycs_values{1980} | 0.23522 | 0.23512 | 0.23522 | 0.23522 | 0.23512 | 0.23522 | 0.23512 | 0.23522 |
| process[Recruitment].ycs_values{1981} | 0.23218 | 0.23209 | 0.23218 | 0.23218 | 0.23209 | 0.23218 | 0.23209 | 0.23218 |
| process[Recruitment].ycs_values{1982} | 0.23321 | 0.23317 | 0.23321 | 0.23321 | 0.23317 | 0.23321 | 0.23317 | 0.23321 |
| process[Recruitment].ycs_values{1983} | 0.24199 | 0.24199 | 0.24199 | 0.24199 | 0.24199 | 0.24199 | 0.24199 | 0.24199 |
| process[Recruitment].ycs_values{1984} | 0.26464 | 0.26470 | 0.26464 | 0.26464 | 0.26470 | 0.26464 | 0.26470 | 0.26464 |
| process[Recruitment].ycs_values{1985} | 0.31484 | 0.31495 | 0.31484 | 0.31484 | 0.31495 | 0.31484 | 0.31495 | 0.31484 |
| process[Recruitment].ycs_values{1986} | 0.41617 | 0.41635 | 0.41617 | 0.41617 | 0.41635 | 0.41617 | 0.41635 | 0.41617 |
| process[Recruitment].ycs_values{1987} | 0.60174 | 0.60199 | 0.60174 | 0.60174 | 0.60200 | 0.60174 | 0.60199 | 0.60174 |
| process[Recruitment].ycs_values{1988} | 0.90212 | 0.90257 | 0.90212 | 0.90212 | 0.90255 | 0.90212 | 0.90257 | 0.90212 |
| process[Recruitment].ycs_values{1989} | 1.37833 | 1.37987 | 1.37833 | 1.37833 | 1.37986 | 1.37833 | 1.37987 | 1.37833 |
| process[Recruitment].ycs_values{1990} | 1.56002 | 1.55856 | 1.56001 | 1.56001 | 1.55858 | 1.56002 | 1.55856 | 1.56001 |
| process[Recruitment].ycs_values{1991} | 1.02890 | 1.02850 | 1.02891 | 1.02891 | 1.02851 | 1.02890 | 1.02850 | 1.02891 |
| process[Recruitment].ycs_values{1992} | 0.84788 | 0.84782 | 0.84788 | 0.84788 | 0.84780 | 0.84788 | 0.84782 | 0.84788 |
| process[Recruitment].ycs_values{1993} | 0.84686 | 0.84708 | 0.84685 | 0.84685 | 0.84708 | 0.84686 | 0.84708 | 0.84685 |
| process[Recruitment].ycs_values{1994} | 1.06536 | 1.06575 | 1.06536 | 1.06536 | 1.06575 | 1.06536 | 1.06575 | 1.06536 |
| process[Recruitment].ycs_values{1995} | 1.54897 | 1.54805 | 1.54897 | 1.54897 | 1.54810 | 1.54897 | 1.54805 | 1.54897 |
| process[Recruitment].ycs_values{1996} | 1.05329 | 1.05345 | 1.05327 | 1.05327 | 1.05337 | 1.05329 | 1.05345 | 1.05327 |
| process[Recruitment].ycs_values{1997} | 0.80305 | 0.80290 | 0.80306 | 0.80306 | 0.80294 | 0.80305 | 0.80290 | 0.80306 |
| process[Recruitment].ycs_values{1998} | 0.81669 | 0.81658 | 0.81669 | 0.81669 | 0.81658 | 0.81669 | 0.81658 | 0.81669 |
| process[Recruitment].ycs_values{1999} | 0.62838 | 0.62894 | 0.62838 | 0.62838 | 0.62894 | 0.62838 | 0.62894 | 0.62838 |
| process[Recruitment].ycs_values{2000} | 0.80206 | 0.80234 | 0.80206 | 0.80206 | 0.80234 | 0.80206 | 0.80234 | 0.80206 |
| process[Recruitment].ycs_values{2001} | 0.74581 | 0.74599 | 0.74581 | 0.74581 | 0.74599 | 0.74581 | 0.74599 | 0.74581 |
| process[Recruitment].ycs_values{2002} | 0.46713 | 0.46675 | 0.46713 | 0.46713 | 0.46675 | 0.46713 | 0.46675 | 0.46713 |
| process[Recruitment].ycs_values{2003} | 1.09423 | 1.09063 | 1.09423 | 1.09423 | 1.09063 | 1.09423 | 1.09063 | 1.09423 |
| process[Recruitment].ycs_values{2004} | 0.92128 | 0.91711 | 0.92128 | 0.92128 | 0.91710 | 0.92128 | 0.91711 | 0.92128 |
| process[Recruitment].ycs_values{2005} | 0.38413 | 0.38256 | 0.38413 | 0.38413 | 0.38256 | 0.38413 | 0.38256 | 0.38413 |
| process[Recruitment].ycs_values{2006} | 0.90589 | 0.90190 | 0.90589 | 0.90589 | 0.90190 | 0.90589 | 0.90190 | 0.90589 |
| process[Recruitment].ycs_values{2007} | 0.70981 | 0.72045 | 0.70981 | 0.70981 | 0.72045 | 0.70981 | 0.72045 | 0.70981 |
| process[Recruitment].ycs_values{2008} | 0.83557 | 0.83479 | 0.83557 | 0.83557 | 0.83479 | 0.83557 | 0.83479 | 0.83557 |
| process[Recruitment].ycs_values{2009} | 0.42630 | 0.42606 | 0.42629 | 0.42630 | 0.42606 | 0.42630 | 0.42606 | 0.42629 |
| process[Recruitment].ycs_values{2010} | 1.28746 | 1.28707 | 1.28746 | 1.28746 | 1.28707 | 1.28746 | 1.28707 | 1.28746 |
| process[Recruitment].ycs_values{2011} | 0.69033 | 0.69110 | 0.69033 | 0.69033 | 0.69110 | 0.69033 | 0.69110 | 0.69033 |
| process[Recruitment].ycs_values{2012} | 0.73638 | 0.73678 | 0.73638 | 0.73638 | 0.73678 | 0.73638 | 0.73678 | 0.73638 |
| process[Recruitment].ycs_values{2013} | 0.56156 | 0.56190 | 0.56156 | 0.56156 | 0.56190 | 0.56156 | 0.56190 | 0.56156 |
| process[Recruitment].ycs_values{2014} | 0.43978 | 0.43978 | 0.43978 | 0.43978 | 0.43978 | 0.43978 | 0.43978 | 0.43978 |
| rownames | betadiff_casal_flags_on | betadiff_casal_flags_off | betadiff_casal_flags_on_low_tol | cppad_casal_flags_on | cppad_casal_flags_off | adolc_casal_flags_on | adolc_casal_flags_off | adolc_casal_flags_on_low_tol |
| process[Recruitment].b0 | 0.000 | -0.078 | 0.000 | 0.000 | -0.078 | 0.000 | -0.078 | 0.000 |
| age_length[asMm0].linf | 0.000 | 0.036 | 0.000 | 0.000 | 0.036 | 0.000 | 0.036 | 0.000 |
| age_length[asMm0].cv_last | 0.000 | -2.757 | 0.000 | 0.000 | -2.757 | 0.000 | -2.757 | 0.000 |
| selectivity[potSurveySel_male].a50 | 0.000 | -0.025 | 0.001 | -0.009 | -0.026 | 0.000 | -0.025 | 0.001 |
| selectivity[potSurveySel_male].ato95 | 0.000 | -0.518 | 0.084 | -0.681 | -0.626 | 0.000 | -0.518 | 0.084 |
| selectivity[potSurveySel_female].a50 | 0.000 | -0.018 | -0.000 | -0.000 | -0.018 | 0.000 | -0.018 | -0.000 |
| selectivity[potSurveySel_female].ato95 | 0.000 | 0.655 | -0.001 | -0.001 | 0.651 | 0.000 | 0.655 | -0.001 |
| process[Recruitment].ycs_values{1980} | 0.000 | 0.045 | 0.000 | 0.000 | 0.045 | 0.000 | 0.045 | 0.000 |
| process[Recruitment].ycs_values{1981} | 0.000 | 0.037 | 0.000 | 0.000 | 0.037 | 0.000 | 0.037 | 0.000 |
| process[Recruitment].ycs_values{1982} | 0.000 | 0.019 | 0.000 | 0.000 | 0.019 | 0.000 | 0.019 | 0.000 |
| process[Recruitment].ycs_values{1983} | 0.000 | -0.002 | 0.000 | -0.000 | -0.002 | 0.000 | -0.002 | 0.000 |
| process[Recruitment].ycs_values{1984} | 0.000 | -0.021 | 0.000 | 0.000 | -0.021 | 0.000 | -0.021 | 0.000 |
| process[Recruitment].ycs_values{1985} | 0.000 | -0.035 | 0.000 | 0.000 | -0.036 | 0.000 | -0.035 | 0.000 |
| process[Recruitment].ycs_values{1986} | 0.000 | -0.042 | 0.000 | 0.000 | -0.042 | 0.000 | -0.042 | 0.000 |
| process[Recruitment].ycs_values{1987} | 0.000 | -0.042 | -0.000 | -0.000 | -0.043 | 0.000 | -0.042 | -0.000 |
| process[Recruitment].ycs_values{1988} | 0.000 | -0.049 | 0.001 | 0.001 | -0.047 | 0.000 | -0.049 | 0.001 |
| process[Recruitment].ycs_values{1989} | 0.000 | -0.112 | 0.000 | 0.000 | -0.111 | 0.000 | -0.112 | 0.000 |
| process[Recruitment].ycs_values{1990} | 0.000 | 0.094 | 0.001 | 0.001 | 0.092 | 0.000 | 0.094 | 0.001 |
| process[Recruitment].ycs_values{1991} | 0.000 | 0.039 | -0.001 | -0.001 | 0.038 | 0.000 | 0.039 | -0.001 |
| process[Recruitment].ycs_values{1992} | 0.000 | 0.007 | 0.000 | 0.000 | 0.009 | 0.000 | 0.007 | 0.000 |
| process[Recruitment].ycs_values{1993} | 0.000 | -0.027 | 0.001 | 0.001 | -0.026 | 0.000 | -0.027 | 0.001 |
| process[Recruitment].ycs_values{1994} | 0.000 | -0.037 | 0.000 | 0.000 | -0.037 | 0.000 | -0.037 | 0.000 |
| process[Recruitment].ycs_values{1995} | 0.000 | 0.059 | 0.000 | 0.000 | 0.056 | 0.000 | 0.059 | 0.000 |
| process[Recruitment].ycs_values{1996} | 0.000 | -0.015 | 0.002 | 0.002 | -0.008 | 0.000 | -0.015 | 0.002 |
| process[Recruitment].ycs_values{1997} | 0.000 | 0.018 | -0.001 | -0.001 | 0.015 | 0.000 | 0.018 | -0.001 |
| process[Recruitment].ycs_values{1998} | 0.000 | 0.014 | -0.000 | -0.000 | 0.013 | 0.000 | 0.014 | -0.000 |
| process[Recruitment].ycs_values{1999} | 0.000 | -0.089 | 0.000 | 0.000 | -0.089 | 0.000 | -0.089 | 0.000 |
| process[Recruitment].ycs_values{2000} | 0.000 | -0.035 | 0.000 | 0.000 | -0.034 | 0.000 | -0.035 | 0.000 |
| process[Recruitment].ycs_values{2001} | 0.000 | -0.024 | 0.000 | 0.000 | -0.024 | 0.000 | -0.024 | 0.000 |
| process[Recruitment].ycs_values{2002} | 0.000 | 0.080 | 0.000 | 0.000 | 0.080 | 0.000 | 0.080 | 0.000 |
| process[Recruitment].ycs_values{2003} | 0.000 | 0.329 | 0.000 | 0.000 | 0.329 | 0.000 | 0.329 | 0.000 |
| process[Recruitment].ycs_values{2004} | 0.000 | 0.453 | 0.000 | 0.000 | 0.453 | 0.000 | 0.453 | 0.000 |
| process[Recruitment].ycs_values{2005} | 0.000 | 0.408 | 0.000 | 0.000 | 0.408 | 0.000 | 0.408 | 0.000 |
| process[Recruitment].ycs_values{2006} | 0.000 | 0.440 | 0.000 | 0.000 | 0.440 | 0.000 | 0.440 | 0.000 |
| process[Recruitment].ycs_values{2007} | 0.000 | -1.499 | 0.000 | 0.000 | -1.499 | 0.000 | -1.499 | 0.000 |
| process[Recruitment].ycs_values{2008} | 0.000 | 0.093 | 0.000 | 0.000 | 0.093 | 0.000 | 0.093 | 0.000 |
| process[Recruitment].ycs_values{2009} | 0.000 | 0.054 | 0.000 | 0.000 | 0.054 | 0.000 | 0.054 | 0.000 |
| process[Recruitment].ycs_values{2010} | 0.000 | 0.030 | 0.000 | 0.000 | 0.030 | 0.000 | 0.030 | 0.000 |
| process[Recruitment].ycs_values{2011} | 0.000 | -0.111 | 0.000 | 0.000 | -0.111 | 0.000 | -0.111 | 0.000 |
| process[Recruitment].ycs_values{2012} | 0.000 | -0.054 | 0.000 | 0.000 | -0.054 | 0.000 | -0.054 | 0.000 |
| process[Recruitment].ycs_values{2013} | 0.000 | -0.062 | 0.000 | 0.000 | -0.062 | 0.000 | -0.062 | 0.000 |
| process[Recruitment].ycs_values{2014} | 0.000 | 0.001 | 0.000 | 0.000 | 0.001 | 0.000 | 0.001 | 0.000 |
| Component | Base_Model | Sensitivity_1 |
| potCPUE | -51.180 | -51.180 |
| potSurveyAbd | -3.254 | -3.254 |
| logbookLF | 54.660 | 54.660 |
| potCommAF | 54.410 | 54.410 |
| potSurveyAF | 118.200 | 118.200 |
| recCatchLF | 68.040 | 68.040 |
| prior_on_initialization.B0 | 9.559 | 9.559 |
| prior_on_recruitment.YCS | 9.658 | 9.658 |
| prior_on_size_at_age.Linf_male | 0.000 | 0.000 |
| prior_on_size_at_age.cv2_male | 0.000 | 0.000 |
| prior_on_selectivity[potSsel].male | 0.000 | 0.000 |
| prior_on_selectivity[potSsel].female | 0.000 | 0.000 |
| prior_on_q_qPotCPUE | -8.331 | -8.331 |
| prior_on_q_potSurveyq | -11.380 | -11.380 |
| clp1F | 0.000 | 0.000 |
| clp2F | 0.000 | 0.000 |
| clp3F | 0.000 | 0.000 |
| YCS | 0.566 | 0.566 |
| Total | 241.000 | 241.000 |
| rownames | betadiff_casal_flags_on | betadiff_casal_flags_off | betadiff_casal_flags_on_low_tol | cppad_casal_flags_on | cppad_casal_flags_off | adolc_casal_flags_on | adolc_casal_flags_off | adolc_casal_flags_on_low_tol |
| observation->potSurvey-2010 | -1.038 | -1.042 | -1.038 | -1.038 | -1.042 | -1.038 | -1.042 | -1.038 |
| observation->potSurvey-2014 | -1.020 | -1.022 | -1.020 | -1.020 | -1.022 | -1.020 | -1.022 | -1.020 |
| observation->potSurvey-2018 | -1.196 | -1.197 | -1.196 | -1.196 | -1.197 | -1.196 | -1.197 | -1.196 |
| observation->potCPUE-1990 | -0.162 | -0.159 | -0.162 | -0.162 | -0.159 | -0.162 | -0.159 | -0.162 |
| observation->potCPUE-1991 | 1.098 | 1.102 | 1.098 | 1.098 | 1.102 | 1.098 | 1.102 | 1.098 |
| observation->potCPUE-1992 | -1.057 | -1.053 | -1.057 | -1.057 | -1.053 | -1.057 | -1.053 | -1.057 |
| observation->potCPUE-1993 | -1.991 | -1.990 | -1.991 | -1.991 | -1.990 | -1.991 | -1.990 | -1.991 |
| observation->potCPUE-1994 | -2.144 | -2.143 | -2.144 | -2.144 | -2.143 | -2.144 | -2.143 | -2.144 |
| observation->potCPUE-1995 | -2.085 | -2.085 | -2.085 | -2.085 | -2.085 | -2.085 | -2.085 | -2.085 |
| observation->potCPUE-1996 | -2.186 | -2.186 | -2.186 | -2.186 | -2.186 | -2.186 | -2.186 | -2.186 |
| observation->potCPUE-1997 | -1.960 | -1.959 | -1.960 | -1.960 | -1.959 | -1.960 | -1.959 | -1.960 |
| observation->potCPUE-1998 | -2.157 | -2.157 | -2.157 | -2.157 | -2.157 | -2.157 | -2.157 | -2.157 |
| observation->potCPUE-1999 | -1.689 | -1.689 | -1.689 | -1.689 | -1.689 | -1.689 | -1.689 | -1.689 |
| observation->potCPUE-2000 | -2.192 | -2.192 | -2.192 | -2.192 | -2.192 | -2.192 | -2.192 | -2.192 |
| observation->potCPUE-2001 | -2.164 | -2.164 | -2.164 | -2.164 | -2.164 | -2.164 | -2.164 | -2.164 |
| observation->potCPUE-2002 | -2.042 | -2.042 | -2.042 | -2.042 | -2.042 | -2.042 | -2.042 | -2.042 |
| observation->potCPUE-2003 | -2.172 | -2.173 | -2.172 | -2.172 | -2.173 | -2.172 | -2.173 | -2.172 |
| observation->potCPUE-2004 | -2.192 | -2.192 | -2.192 | -2.192 | -2.192 | -2.192 | -2.192 | -2.192 |
| observation->potCPUE-2005 | -1.908 | -1.911 | -1.908 | -1.908 | -1.911 | -1.908 | -1.911 | -1.908 |
| observation->potCPUE-2006 | -1.793 | -1.797 | -1.793 | -1.793 | -1.797 | -1.793 | -1.797 | -1.793 |
| observation->potCPUE-2007 | -2.176 | -2.177 | -2.176 | -2.176 | -2.177 | -2.176 | -2.177 | -2.176 |
| observation->potCPUE-2008 | -2.188 | -2.189 | -2.188 | -2.188 | -2.189 | -2.188 | -2.189 | -2.188 |
| observation->potCPUE-2009 | -2.051 | -2.051 | -2.051 | -2.051 | -2.051 | -2.051 | -2.051 | -2.051 |
| observation->potCPUE-2010 | -2.122 | -2.124 | -2.122 | -2.122 | -2.124 | -2.122 | -2.124 | -2.122 |
| observation->potCPUE-2011 | -1.875 | -1.865 | -1.875 | -1.875 | -1.865 | -1.875 | -1.865 | -1.875 |
| observation->potCPUE-2012 | -1.767 | -1.756 | -1.767 | -1.767 | -1.756 | -1.767 | -1.756 | -1.767 |
| observation->potCPUE-2013 | -1.775 | -1.769 | -1.775 | -1.775 | -1.769 | -1.775 | -1.769 | -1.775 |
| observation->potCPUE-2014 | -1.038 | -1.034 | -1.038 | -1.038 | -1.034 | -1.038 | -1.034 | -1.038 |
| observation->potCPUE-2015 | -1.851 | -1.851 | -1.851 | -1.851 | -1.851 | -1.851 | -1.851 | -1.851 |
| observation->potCPUE-2016 | -2.092 | -2.092 | -2.092 | -2.092 | -2.092 | -2.092 | -2.092 | -2.092 |
| observation->potCPUE-2017 | -2.104 | -2.105 | -2.104 | -2.104 | -2.105 | -2.104 | -2.105 | -2.104 |
| observation->potCPUE-2018 | -1.352 | -1.347 | -1.352 | -1.352 | -1.347 | -1.352 | -1.347 | -1.352 |
| observation->AFpotSurvey-2010 | 39.659 | 39.754 | 39.659 | 39.659 | 39.754 | 39.659 | 39.754 | 39.659 |
| observation->AFpotSurvey-2014 | 39.371 | 39.383 | 39.371 | 39.371 | 39.383 | 39.371 | 39.383 | 39.371 |
| observation->AFpotSurvey-2018 | 39.165 | 39.136 | 39.165 | 39.165 | 39.136 | 39.165 | 39.136 | 39.165 |
| observation->AFpotFishing-2018 | 47.103 | 47.146 | 47.103 | 47.103 | 47.146 | 47.103 | 47.146 | 47.103 |
| observation->AFpotFishing-2019 | 7.888 | 7.887 | 7.888 | 7.888 | 7.887 | 7.888 | 7.887 | 7.888 |
| observation->lgobookLF | 54.894 | 54.862 | 54.894 | 54.894 | 54.862 | 54.894 | 54.862 | 54.894 |
| observation->rec.catch.LF | 67.727 | 68.611 | 67.727 | 67.727 | 68.611 | 67.727 | 68.611 | 67.727 |
| prior->B0->process[Recruitment].b0 | 9.561 | 9.562 | 9.561 | 9.561 | 9.562 | 9.561 | 9.562 | 9.561 |
| prior->male_Linf->age_length[asMm0].linf | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 |
| prior->male_cv2->age_length[asMm0].cv_last | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 |
| prior->potSurvey_mA50->selectivity[potSurveySel_male].a50 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 |
| prior->potSurvey_mAto95->selectivity[potSurveySel_male].ato95 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 |
| prior->potSurvey_fA50->selectivity[potSurveySel_female].a50 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 |
| prior->potSurvey_fAto95->selectivity[potSurveySel_female].ato95 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 |
| prior->YCS->process[Recruitment].ycs_values{1980} | 1.273 | 1.275 | 1.273 | 1.273 | 1.275 | 1.273 | 1.275 | 1.273 |
| prior->YCS->process[Recruitment].ycs_values{1981} | 1.315 | 1.317 | 1.315 | 1.315 | 1.317 | 1.315 | 1.317 | 1.315 |
| prior->YCS->process[Recruitment].ycs_values{1982} | 1.301 | 1.302 | 1.301 | 1.301 | 1.302 | 1.301 | 1.302 | 1.301 |
| prior->YCS->process[Recruitment].ycs_values{1983} | 1.184 | 1.184 | 1.184 | 1.184 | 1.184 | 1.184 | 1.184 | 1.184 |
| prior->YCS->process[Recruitment].ycs_values{1984} | 0.918 | 0.917 | 0.918 | 0.918 | 0.917 | 0.918 | 0.917 | 0.918 |
| prior->YCS->process[Recruitment].ycs_values{1985} | 0.477 | 0.476 | 0.477 | 0.477 | 0.476 | 0.477 | 0.476 | 0.477 |
| prior->YCS->process[Recruitment].ycs_values{1986} | -0.027 | -0.027 | -0.027 | -0.027 | -0.027 | -0.027 | -0.027 | -0.027 |
| prior->YCS->process[Recruitment].ycs_values{1987} | -0.304 | -0.304 | -0.304 | -0.304 | -0.304 | -0.304 | -0.304 | -0.304 |
| prior->YCS->process[Recruitment].ycs_values{1988} | -0.099 | -0.098 | -0.099 | -0.099 | -0.098 | -0.099 | -0.098 | -0.099 |
| prior->YCS->process[Recruitment].ycs_values{1989} | 0.687 | 0.690 | 0.687 | 0.687 | 0.690 | 0.687 | 0.690 | 0.687 |
| prior->YCS->process[Recruitment].ycs_values{1990} | 1.027 | 1.024 | 1.027 | 1.027 | 1.024 | 1.027 | 1.024 | 1.027 |
| prior->YCS->process[Recruitment].ycs_values{1991} | 0.082 | 0.082 | 0.083 | 0.083 | 0.082 | 0.082 | 0.082 | 0.083 |
| prior->YCS->process[Recruitment].ycs_values{1992} | -0.165 | -0.165 | -0.165 | -0.165 | -0.165 | -0.165 | -0.165 | -0.165 |
| prior->YCS->process[Recruitment].ycs_values{1993} | -0.166 | -0.166 | -0.166 | -0.166 | -0.166 | -0.166 | -0.166 | -0.166 |
| prior->YCS->process[Recruitment].ycs_values{1994} | 0.140 | 0.141 | 0.140 | 0.140 | 0.141 | 0.140 | 0.141 | 0.140 |
| prior->YCS->process[Recruitment].ycs_values{1995} | 1.006 | 1.004 | 1.006 | 1.006 | 1.005 | 1.006 | 1.004 | 1.006 |
| prior->YCS->process[Recruitment].ycs_values{1996} | 0.121 | 0.121 | 0.121 | 0.121 | 0.121 | 0.121 | 0.121 | 0.121 |
| prior->YCS->process[Recruitment].ycs_values{1997} | -0.212 | -0.212 | -0.212 | -0.212 | -0.212 | -0.212 | -0.212 | -0.212 |
| prior->YCS->process[Recruitment].ycs_values{1998} | -0.199 | -0.199 | -0.199 | -0.199 | -0.199 | -0.199 | -0.199 | -0.199 |
| prior->YCS->process[Recruitment].ycs_values{1999} | -0.307 | -0.307 | -0.307 | -0.307 | -0.307 | -0.307 | -0.307 | -0.307 |
| prior->YCS->process[Recruitment].ycs_values{2000} | -0.213 | -0.213 | -0.213 | -0.213 | -0.213 | -0.213 | -0.213 | -0.213 |
| prior->YCS->process[Recruitment].ycs_values{2001} | -0.262 | -0.261 | -0.262 | -0.262 | -0.261 | -0.262 | -0.261 | -0.262 |
| prior->YCS->process[Recruitment].ycs_values{2002} | -0.161 | -0.160 | -0.161 | -0.161 | -0.160 | -0.161 | -0.160 | -0.161 |
| prior->YCS->process[Recruitment].ycs_values{2003} | 0.187 | 0.181 | 0.187 | 0.187 | 0.181 | 0.187 | 0.181 | 0.187 |
| prior->YCS->process[Recruitment].ycs_values{2004} | -0.074 | -0.079 | -0.074 | -0.074 | -0.079 | -0.074 | -0.079 | -0.074 |
| prior->YCS->process[Recruitment].ycs_values{2005} | 0.092 | 0.098 | 0.092 | 0.092 | 0.098 | 0.092 | 0.098 | 0.092 |
| prior->YCS->process[Recruitment].ycs_values{2006} | -0.094 | -0.099 | -0.094 | -0.094 | -0.099 | -0.094 | -0.099 | -0.094 |
| prior->YCS->process[Recruitment].ycs_values{2007} | -0.285 | -0.279 | -0.285 | -0.285 | -0.279 | -0.285 | -0.279 | -0.285 |
| prior->YCS->process[Recruitment].ycs_values{2008} | -0.179 | -0.179 | -0.179 | -0.179 | -0.179 | -0.179 | -0.179 | -0.179 |
| prior->YCS->process[Recruitment].ycs_values{2009} | -0.058 | -0.058 | -0.058 | -0.058 | -0.058 | -0.058 | -0.058 | -0.058 |
| prior->YCS->process[Recruitment].ycs_values{2010} | 0.521 | 0.521 | 0.521 | 0.521 | 0.521 | 0.521 | 0.521 | 0.521 |
| prior->YCS->process[Recruitment].ycs_values{2011} | -0.294 | -0.294 | -0.294 | -0.294 | -0.294 | -0.294 | -0.294 | -0.294 |
| prior->YCS->process[Recruitment].ycs_values{2012} | -0.268 | -0.268 | -0.268 | -0.268 | -0.268 | -0.268 | -0.268 | -0.268 |
| prior->YCS->process[Recruitment].ycs_values{2013} | -0.286 | -0.286 | -0.286 | -0.286 | -0.286 | -0.286 | -0.286 | -0.286 |
| prior->YCS->process[Recruitment].ycs_values{2014} | -0.096 | -0.096 | -0.096 | -0.096 | -0.096 | -0.096 | -0.096 | -0.096 |
| additional_prior->PrSurveyQ | -11.367 | -11.368 | -11.367 | -11.367 | -11.368 | -11.367 | -11.368 | -11.367 |
| additional_prior->PrCPUEQ | -8.333 | -8.334 | -8.333 | -8.333 | -8.334 | -8.333 | -8.334 | -8.333 |
| additional_prior->YCS_average_1 | 0.559 | 0.559 | 0.559 | 0.559 | 0.559 | 0.559 | 0.559 | 0.559 |
| total_negloglike | 238.370 | 239.365 | 238.370 | 238.370 | 239.365 | 238.370 | 239.365 | 238.370 |
## [1] "CASAL base model convergence information"
## [1] "Minimiser convergence threshold: 2e-005"
## [2] "fmm: have converged: t = 1.53773e-005 f = 240.986"
## [3] "Successful convergence in optimise"
## [4] "Minimiser achieved convergence after 91 quasi-Newton iterations using 101 objective function evaluations"
## [1] ""
## [1] "CASAL sensitivity 1 model convergence information"
## [1] "Minimiser convergence threshold: 1e-007"
## [2] "fmm: step size too small. Indicates successful convergence (though this is not the textbook ideal convergence situation)"
## [3] "Successful convergence in optimise"
## [4] "Minimiser achieved convergence after 99 quasi-Newton iterations using 119 objective function evaluations"
## [1] ""
## [1] "Casal2 betadiff_casal_flags_on model convergence information"
## [1] "fmm: have converged: t = 4.14853e-06 f = 238.37"
## [2] "Successful convergence in optimise"
## [1] ""
## [1] "Casal2 betadiff_casal_flags_off model convergence information"
## [1] "fmm: have converged: t = 2.71219e-06 f = 239.365"
## [2] "Successful convergence in optimise"
## [1] ""
## [1] "Casal2 betadiff_casal_flags_on_low_tol model convergence information"
## [1] "fmm: step size too small. Indicates successful convergence (though this is not the textbook ideal convergence situation)"
## [2] "Successful convergence in optimise"
## [1] ""
## [1] "Casal2 cppad_casal_flags_on model convergence information"
## [1] "Number of nonzeros in equality constraint Jacobian...: 0"
## [2] "Number of nonzeros in inequality constraint Jacobian.: 42"
## [3] "Number of nonzeros in Lagrangian Hessian.............: 903"
## [4] "Number of Iterations....: 20"
## [5] "Number of objective function evaluations = 110"
## [6] "Number of objective gradient evaluations = 21"
## [7] "Number of equality constraint evaluations = 0"
## [8] "Number of inequality constraint evaluations = 110"
## [9] "Number of equality constraint Jacobian evaluations = 0"
## [10] "Number of inequality constraint Jacobian evaluations = 21"
## [11] "Number of Lagrangian Hessian evaluations = 20"
## [12] "EXIT: Maximum Number of Iterations Exceeded."
## [1] ""
## [1] "Casal2 cppad_casal_flags_off model convergence information"
## [1] "Number of nonzeros in equality constraint Jacobian...: 0"
## [2] "Number of nonzeros in inequality constraint Jacobian.: 42"
## [3] "Number of nonzeros in Lagrangian Hessian.............: 903"
## [4] "Number of Iterations....: 20"
## [5] "Number of objective function evaluations = 115"
## [6] "Number of objective gradient evaluations = 21"
## [7] "Number of equality constraint evaluations = 0"
## [8] "Number of inequality constraint evaluations = 115"
## [9] "Number of equality constraint Jacobian evaluations = 0"
## [10] "Number of inequality constraint Jacobian evaluations = 21"
## [11] "Number of Lagrangian Hessian evaluations = 20"
## [12] "EXIT: Maximum Number of Iterations Exceeded."
## [1] ""
## [1] "Casal2 adolc_casal_flags_on model convergence information"
## character(0)
## [1] ""
## [1] "Casal2 adolc_casal_flags_off model convergence information"
## character(0)
## [1] ""
## [1] "Casal2 adolc_casal_flags_on_low_tol model convergence information"
## character(0)
## [1] "CASAL model warnings"
## NULL
## [1] ""
## [1] "CASAL sensitivity 1 model warnings"
## NULL
## [1] ""
## [1] "Casal2 betadiff_casal_flags_on model warnings"
## $warnings_found
## [1] 1
##
## $warning_0
## [1] "Estimates were removed because of matching lower and upper bounds. Originally had 127 estimates, now have 42"
##
## $type
## [1] "warnings"
##
## [1] ""
## [1] "Casal2 betadiff_casal_flags_off model warnings"
## $warnings_found
## [1] 1
##
## $warning_0
## [1] "Estimates were removed because of matching lower and upper bounds. Originally had 127 estimates, now have 42"
##
## $type
## [1] "warnings"
##
## [1] ""
## [1] "Casal2 betadiff_casal_flags_on_low_tol model warnings"
## $warnings_found
## [1] 1
##
## $warning_0
## [1] "Estimates were removed because of matching lower and upper bounds. Originally had 127 estimates, now have 42"
##
## $type
## [1] "warnings"
##
## [1] ""
## [1] "Casal2 cppad_casal_flags_on model warnings"
## $warnings_found
## [1] 1
##
## $warning_0
## [1] "Estimates were removed because of matching lower and upper bounds. Originally had 127 estimates, now have 42"
##
## $type
## [1] "warnings"
##
## [1] ""
## [1] "Casal2 cppad_casal_flags_off model warnings"
## $warnings_found
## [1] 1
##
## $warning_0
## [1] "Estimates were removed because of matching lower and upper bounds. Originally had 127 estimates, now have 42"
##
## $type
## [1] "warnings"
##
## [1] ""
## [1] "Casal2 adolc_casal_flags_on model warnings"
## $warnings_found
## [1] 1
##
## $warning_0
## [1] "Estimates were removed because of matching lower and upper bounds. Originally had 127 estimates, now have 42"
##
## $type
## [1] "warnings"
##
## [1] ""
## [1] "Casal2 adolc_casal_flags_off model warnings"
## $warnings_found
## [1] 1
##
## $warning_0
## [1] "Estimates were removed because of matching lower and upper bounds. Originally had 127 estimates, now have 42"
##
## $type
## [1] "warnings"
##
## [1] ""
## [1] "Casal2 adolc_casal_flags_on_low_tol model warnings"
## $warnings_found
## [1] 1
##
## $warning_0
## [1] "Estimates were removed because of matching lower and upper bounds. Originally had 127 estimates, now have 42"
##
## $type
## [1] "warnings"
Time series comparisons with CASAL base model results
## [1] "Catch time series base model comparison for run betadiff_casal_flags_on"
## [1] "Removals / Actual catches for line match: no"
## [1] "Discarded catches for line match: no"
## [1] "Removals / Actual catches for pot match: no"
## [1] "Discarded catches for pot match: no"
## [1] "Removals / Actual catches for rec match: no"
## [1] "Discarded catches for rec match: no"
## [1] ""
## [1] "Catch time series base model comparison for run betadiff_casal_flags_off"
## [1] "Removals / Actual catches for line match: no"
## [1] "Discarded catches for line match: no"
## [1] "Removals / Actual catches for pot match: no"
## [1] "Discarded catches for pot match: no"
## [1] "Removals / Actual catches for rec match: no"
## [1] "Discarded catches for rec match: no"
## [1] ""
## [1] "Catch time series base model comparison for run betadiff_casal_flags_on_low_tol"
## [1] "Removals / Actual catches for line match: no"
## [1] "Discarded catches for line match: no"
## [1] "Removals / Actual catches for pot match: no"
## [1] "Discarded catches for pot match: no"
## [1] "Removals / Actual catches for rec match: no"
## [1] "Discarded catches for rec match: no"
## [1] ""
## [1] "Catch time series base model comparison for run cppad_casal_flags_on"
## [1] "Removals / Actual catches for line match: no"
## [1] "Discarded catches for line match: no"
## [1] "Removals / Actual catches for pot match: no"
## [1] "Discarded catches for pot match: no"
## [1] "Removals / Actual catches for rec match: no"
## [1] "Discarded catches for rec match: no"
## [1] ""
## [1] "Catch time series base model comparison for run cppad_casal_flags_off"
## [1] "Removals / Actual catches for line match: no"
## [1] "Discarded catches for line match: no"
## [1] "Removals / Actual catches for pot match: no"
## [1] "Discarded catches for pot match: no"
## [1] "Removals / Actual catches for rec match: no"
## [1] "Discarded catches for rec match: no"
## [1] ""
## [1] "Catch time series base model comparison for run adolc_casal_flags_on"
## [1] "Removals / Actual catches for line match: no"
## [1] "Discarded catches for line match: no"
## [1] "Removals / Actual catches for pot match: no"
## [1] "Discarded catches for pot match: no"
## [1] "Removals / Actual catches for rec match: no"
## [1] "Discarded catches for rec match: no"
## [1] ""
## [1] "Catch time series base model comparison for run adolc_casal_flags_off"
## [1] "Removals / Actual catches for line match: no"
## [1] "Discarded catches for line match: no"
## [1] "Removals / Actual catches for pot match: no"
## [1] "Discarded catches for pot match: no"
## [1] "Removals / Actual catches for rec match: no"
## [1] "Discarded catches for rec match: no"
## [1] ""
## [1] "Catch time series base model comparison for run adolc_casal_flags_on_low_tol"
## [1] "Removals / Actual catches for line match: no"
## [1] "Discarded catches for line match: no"
## [1] "Removals / Actual catches for pot match: no"
## [1] "Discarded catches for pot match: no"
## [1] "Removals / Actual catches for rec match: no"
## [1] "Discarded catches for rec match: no"
## [1] ""
Derived quantities
SB0, SBcurrent, MSY, F_MSY, others…
Comparison plots
## [1] "CASAL base parameter correlation range (excluding 1.0): -0.6876 0.9999"
## [1] "CASAL sensitivity 1 parameter correlation range (excluding 1.0): -0.6894 0.9999"
## [1] "Casal2 betadiff_casal_flags_on parameter correlation range (excluding 1.0): -0.704682058267449 0.999819516983665"
## [1] "Casal2 betadiff_casal_flags_off parameter correlation range (excluding 1.0): -0.697745743037247 0.999863100354264"
## [1] "Casal2 betadiff_casal_flags_on_low_tol parameter correlation range (excluding 1.0): -0.722472902754433 0.999845201096008"
## [1] "Casal2 cppad_casal_flags_on parameter correlation range (excluding 1.0): 0 0"
## [1] "Casal2 cppad_casal_flags_off parameter correlation range (excluding 1.0): 0 0"
## [1] "Casal2 adolc_casal_flags_on parameter correlation range (excluding 1.0): -0.704683609734695 0.99981954195823"
## [1] "Casal2 adolc_casal_flags_off parameter correlation range (excluding 1.0): -0.697745743037247 0.999863100354264"
## [1] "Casal2 adolc_casal_flags_on_low_tol parameter correlation range (excluding 1.0): -0.719263523071944 0.999846316745602"